Locus 2694

Sequence ID 3L_DroMel_CAF1
Location 7,533,678 – 7,533,776
Length 98
Max. P 0.890171
window4211 window4212

overview

Window 1

Location 7,533,678 – 7,533,776
Length 98
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.55
Mean single sequence MFE -41.85
Consensus MFE -25.29
Energy contribution -26.10
Covariance contribution 0.81
Combinations/Pair 1.08
Mean z-score -1.75
Structure conservation index 0.60
SVM decision value 0.96
SVM RNA-class probability 0.890171
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7533678 98 + 23771897
CGGCCUCGCCCUUCUGUUUGA------------CAUGGCUGGCGGCUUUCAGCAUUUCGCUGCCCGCCGUUGCAACCAUGGGAGUGCUGCUGGCACAGCCCAUGACUUCU----------
.(((...))).......(((.------------.(((((.((((((............)))))).)))))..))).((((((.((((.....))))..))))))......---------- ( -36.10)
>DroPse_CAF1 4266 108 + 1
CGGCCUCGCCCUUCUCCCGGA------------CAUGGGUGGCGGCUUUCAGCAUUUCGCUGCCGGCCGUUGCAACCAUGGGAGUGCUGCUGGCACAGCCCAUGACUCCUGUGGGGCUGC
(((((((((((.......)).------------...(((..((((((..((((.....))))..))))))..)...((((((.((((.....))))..))))))...)).))))))))). ( -51.80)
>DroGri_CAF1 4342 108 + 1
CGGCUUCGCCUUGCUUCUUGACAUCGCUUGCCACAUGAGUGGCGGCUUUUAGCAUUUCACUGCCUGCAGUUGCCACCAUUGGAGUGCUGCUAGCACAGCCCAUUGCUA------------
.((((..((..(((.....).))..)).((((((....))))))(((..((((((((((.((...((....))...)).))))))))))..)))..))))........------------ ( -34.60)
>DroWil_CAF1 11754 110 + 1
CCGCCUCGCCUUGCUGCUUAACAUCACCAGCCACAUGGGUGGCAGCUUUCAACAUUUCACUGCCCGCAGUUGCCACCAUGGGAGUGCUGCUGGCGCAGCCCAUGACUUUU----------
............((((((((.((.(((...((.(((((.((((((((.....((......)).....))))))))))))))).))).)).))).)))))...........---------- ( -33.90)
>DroMoj_CAF1 4787 116 + 1
CCGCUUCGCCUUGCUUUUGAACAUCGCCUGCCACAUGUGUGGCAGCUUUUAGCAUUUCGCUGCCAGCCGUUGCAACCAUCGGAGUGCUGCUGGCGCAGCCCAUGGCUGCUCUC----UCU
.......(((..((...........((.((((((....))))))))....(((((((((.((...((....))...)).))))))))))).)))((((((...))))))....----... ( -42.90)
>DroPer_CAF1 4315 108 + 1
CGGCCUCGCCCUUCUCCCGGA------------CAUGGGUGGCGGCUUUCAGCAUUUCGCUGCCGGCCGUUGCAACCAUGGGAGUGCUGCUGGCACAGCCCAUGACUCCUGUGGGGCUGC
(((((((((((.......)).------------...(((..((((((..((((.....))))..))))))..)...((((((.((((.....))))..))))))...)).))))))))). ( -51.80)
>consensus
CGGCCUCGCCCUGCUCCUGGA____________CAUGGGUGGCGGCUUUCAGCAUUUCGCUGCCCGCCGUUGCAACCAUGGGAGUGCUGCUGGCACAGCCCAUGACUCCU__________
.(((...))).......................(((((((....(((..(((((((((..((...((....))...))..)))))))))..)))...)))))))................ (-25.29 = -26.10 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 7,533,678 – 7,533,776
Length 98
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.55
Mean single sequence MFE -42.55
Consensus MFE -25.38
Energy contribution -25.68
Covariance contribution 0.31
Combinations/Pair 1.27
Mean z-score -1.67
Structure conservation index 0.60
SVM decision value 0.73
SVM RNA-class probability 0.835689
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7533678 98 - 23771897
----------AGAAGUCAUGGGCUGUGCCAGCAGCACUCCCAUGGUUGCAACGGCGGGCAGCGAAAUGCUGAAAGCCGCCAGCCAUG------------UCAAACAGAAGGGCGAGGCCG
----------.(.(..((((((..((((.....)))).))))))..).)...(((...((((.....))))...)))(((.(((...------------((.....))..)))..))).. ( -39.40)
>DroPse_CAF1 4266 108 - 1
GCAGCCCCACAGGAGUCAUGGGCUGUGCCAGCAGCACUCCCAUGGUUGCAACGGCCGGCAGCGAAAUGCUGAAAGCCGCCACCCAUG------------UCCGGGAGAAGGGCGAGGCCG
(((((((....))...((((((..((((.....)))).)))))))))))..(((((..((((.....)))).....((((.(((...------------...))).....)))).))))) ( -46.40)
>DroGri_CAF1 4342 108 - 1
------------UAGCAAUGGGCUGUGCUAGCAGCACUCCAAUGGUGGCAACUGCAGGCAGUGAAAUGCUAAAAGCCGCCACUCAUGUGGCAAGCGAUGUCAAGAAGCAAGGCGAAGCCG
------------........((((....(((((.((((((..((((....))))..)).))))...)))))...((((((((....)))))..((...........))..)))..)))). ( -37.00)
>DroWil_CAF1 11754 110 - 1
----------AAAAGUCAUGGGCUGCGCCAGCAGCACUCCCAUGGUGGCAACUGCGGGCAGUGAAAUGUUGAAAGCUGCCACCCAUGUGGCUGGUGAUGUUAAGCAGCAAGGCGAGGCGG
----------....(((....(((((...((((.((((((((((((((((.((...((((......))))...)).))))).))))).))..)))).))))..)))))..)))....... ( -40.50)
>DroMoj_CAF1 4787 116 - 1
AGA----GAGAGCAGCCAUGGGCUGCGCCAGCAGCACUCCGAUGGUUGCAACGGCUGGCAGCGAAAUGCUAAAAGCUGCCACACAUGUGGCAGGCGAUGUUCAAAAGCAAGGCGAAGCGG
...----....(((((((((((((((....)))))...)).))))))))..(.(((((((......)))).....(((((((....)))))))((..(((......)))..))..))).) ( -45.60)
>DroPer_CAF1 4315 108 - 1
GCAGCCCCACAGGAGUCAUGGGCUGUGCCAGCAGCACUCCCAUGGUUGCAACGGCCGGCAGCGAAAUGCUGAAAGCCGCCACCCAUG------------UCCGGGAGAAGGGCGAGGCCG
(((((((....))...((((((..((((.....)))).)))))))))))..(((((..((((.....)))).....((((.(((...------------...))).....)))).))))) ( -46.40)
>consensus
__________AGAAGUCAUGGGCUGUGCCAGCAGCACUCCCAUGGUUGCAACGGCCGGCAGCGAAAUGCUGAAAGCCGCCACCCAUG____________UCAAGAAGAAAGGCGAGGCCG
....................((((.((((.(((((.(......))))))..((((...((((.....))))...))))................................)))).)))). (-25.38 = -25.68 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:25 2006